RnoINT0036319 @ rn6
Intron Retention
Gene
ENSRNOG00000014698 | Chrnb1
Description
cholinergic receptor nicotinic beta 1 subunit [Source:RGD Symbol;Acc:2349]
Coordinates
chr10:56390671-56391958:-
Coord C1 exon
chr10:56391811-56391958
Coord A exon
chr10:56391512-56391810
Coord C2 exon
chr10:56390671-56391511
Length
299 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
CTTTTTCTGTCTACCCTTAGCTG
3' ss Score
9.68
Exon sequences
Seq C1 exon
GTTTCAGCCTGAATCACCTGCTCCGGACCTGAGACGATTTATCGATGGTCCACCCCGGGCTGTAGGTCTGCCTCAGGAGCTACGCGAGGTCATTTCTTCCATCAGCTACATGGCCCGACAACTTCAGGAACAGGAGGACCACGATGCA
Seq A exon
GTAAGTCCCAAGAGTCTGGAGCCTACAGGCTCGGGACCTCGGCTCCACCCCTAACTTCAAGCCCCGCCCTTAACAGTCCCTTCTGTTTCTGATTGGACGTGTGCTTGGTTTTTGTCCTCTTCCTGCTTTCCGATTGGTTCTTTACTTTCATATCTAGCTGGTGCCTGGCTTTTGCGCTCCTTTCCTTTTTCTCTCATTCCAAGTGAGGAGACCTTGGCAGAAAACTGAAAGGGGTGGGCTTTCCAGGGCTCGGGACCTGGAGCTTTTTTTTTTTTTTTTCTTTTTCTGTCTACCCTTAG
Seq C2 exon
CTGAAGGAGGACTGGCAGTTTGTCGCCATGGTTGTGGACCGTCTTTTTCTGTGGACATTCATCGTTTTCACAAGCGTCGGGACGCTAGTCATTTTCCTAGATGCCACGTACCATTTGCCCCCTCCTGAACCTTTTCCTTGAGGACCCTCCGGTCATTTTTGCCAAGTGCTGCAGGTACTCTCACGCTGTATAGCGCTTGGCTCCTGTAAGAATCTTGTTCTTGTTTCTGGGAAGACGTTGAAGTGGGACTTGGGGGGTGAGCAGGGTGCCTTGGACTTCAACAAATGTCCTTCAACCCATTAGTTTTGTTCTTCTGCAGCTTTGTTTTTGTTGGTTTTTTTTTTGTTGTTGTTGTTTTGTCCCCCCCCCCCCCCCGGGCTGGGGAGCGAACCCAGGATCTTGCGCTTCCTAGGTAGAAGCGCTCTACCACTGAGCCAAATCCCCAACCCCGTTTTTGTTGTTTTTGAGACAGAGTCTCACTCTGTGTCCCAGGCTAGCCTGGAACTATGAAGTCCAGGCTGGCCTCAAACTCCCAGCAGTGTTACTTCCTTAGCTTACCAAATGTTGGAATGGCAGGTCTGGTAAGCCAGCGCACTTGGATTTTGTTTCTTGAAACTACACAGAATGTCACAACTTAGATATCTAGTGAAAGAGAATTATAAGCAACTAGTAGCTTGAAAGCCTTTGGAGGACAGGAAATCTGTTGGCTACTGTAACGTCCCCAGCAATGCGCACAGGTCCTACCCCATAAGTGCTTAACATTTGTTGAAGAGGGAAAAAAATCCGGAAGGAAATACAAAATAATACTGCCTACAATTGCATGTATTGAAATTAAAATGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014698:ENSRNOT00000019947:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(20.8=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(13.1=66.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCCATCAGCTACATGGCCC
R:
CCCACTTCAACGTCTTCCCAG
Band lengths:
300-599
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]